Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005575.1 Hibiscus syriacus cultivar Beakdansim tig00012936_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 214437
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 2 of 2
Found at i:186390 original size:29 final size:29
Alignment explanation
Indices: 186348--186405 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
186338 ACTTTAGCAC
186348 CCTCCAAGCCTGGCTCCGGCATGATTGTT
1 CCTCCAAGCCTGGCTCCGGCATGATTGTT
*
186377 CCTCCAAGGCTGGCTCCGGCATGATTGTT
1 CCTCCAAGCCTGGCTCCGGCATGATTGTT
186406 GCTATCAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.14, C:0.33, G:0.26, T:0.28
Consensus pattern (29 bp):
CCTCCAAGCCTGGCTCCGGCATGATTGTT
Found at i:188459 original size:2 final size:2
Alignment explanation
Indices: 188454--188493 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
188444 TAAAACACAC
*
188454 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
188494 AGAGTATATC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:189922 original size:23 final size:23
Alignment explanation
Indices: 189887--189959 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
189877 ATACTTTACA
*
189887 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
189910 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
189933 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
189956 ATAT
1 ATAT
189960 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:190353 original size:23 final size:23
Alignment explanation
Indices: 190327--190389 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
190317 ATATAACCAC
190327 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
190350 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
190373 TACCTATTACATCATAT
1 TACCTATTACATTATAT
190390 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:190752 original size:426 final size:430
Alignment explanation
Indices: 189724--192034 Score: 4153
Period size: 429 Copynumber: 5.4 Consensus size: 430
189714 ATGTTTATTG
*
189724 TTTTTAATTTAATAATAATATAT-T-ATAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
189787 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
189851 TAT-GAACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATA
131 TATAG-ACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATA
*
189915 AACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAA
195 AACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAA
*
189980 GTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATT
260 GTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATT
* *
190045 TTTTTAATAGTGTTTCATGTTTTCCACCCACAATATTAATTTAATAATTTCATTTGCACAAAAAA
325 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
190110 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
390 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
*
190151 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTATT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
*
190216 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAA
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
190281 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
190346 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
* * *
190411 TATACATAC-TTTTATAAAAATGATCGATACTT-TGTTTAAAGTTATGTAATTTATGTTTCAATT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCT-TTTAAAGTTATGTAATTTATGTTTCAATT
*
190474 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAA
325 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
190539 TTATTTGATTG-TTTGATATTTTA-AAAATAATATTTAGAA
390 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
*
190578 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAA-AAATCATTAGACGTCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
* *
190642 AAATTAATATCCTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
190707 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTAGCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
*
190772 ATGATACCTATTACATTATAT-AGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
190836 TGTCCATACTTTTTAT-AAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TT
*
190900 TTTTTAATAGTGTTTCATGTTTTCCACTTACAATATTAATTTAATAATTTCATTTACACAAAAAA
325 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
* *
190965 TTATTTAATTGTTTTGATATTTGATAAAATAATATTTAGAA
390 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
*
191006 TTTTTAA-TTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCTTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
191070 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
191135 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
191200 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATA-TTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
*
191264 TGTCCATACTTTTTATAAAAA-GATCGATACTT-GTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
191327 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
326 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
191392 TATTTGATTGTTTT-A-ATTTTGATAAAATAATATTTAGAA
391 TATTTGATTGTTTTGATATTTT-ATAAAATAATATTTAGAA
*
191431 TTTTTAA-TT--TAATAATATATATCGTAACGTAAAAAATAAATCATTAGAAGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
*
191493 AAATTAATATCTTAAAACTCACTCAAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
191558 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
* * *
191623 ATGATACCTATTACATTATATAAGCACTACCTATTACATCATATTTTTACATATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
191688 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TT
191753 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
325 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
* *
191818 TTATTTGATTGTTTTGATATTTGATAAAATAATATTTAAAA
390 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
191859 TTTTTAATTTAATAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
191922 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
191987 TATAGACACTTTTATAAAAAGGATAGATATTTTACAATATAACCACTA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTA
192035 TGTTGGGATT
Statistics
Matches: 1817, Mismatches: 44, Indels: 44
0.95 0.02 0.02
Matches are distributed among these distances:
423 221 0.12
424 45 0.02
425 131 0.07
426 358 0.20
427 229 0.13
428 280 0.15
429 409 0.23
430 139 0.08
431 5 0.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (430 bp):
TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
Found at i:190804 original size:22 final size:23
Alignment explanation
Indices: 190756--190814 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
190746 TAACCACTAG
*
190756 CTATTACATTATATAAATGATAC
1 CTATTACATTATATAAACGATAC
* *
190779 CTATTACATTATAT-AGCGCTAC
1 CTATTACATTATATAAACGATAC
*
190801 CTATTACATCATAT
1 CTATTACATTATAT
190815 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.39
Consensus pattern (23 bp):
CTATTACATTATATAAACGATAC
Found at i:191207 original size:23 final size:23
Alignment explanation
Indices: 191181--191243 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
191171 ATATAACCAC
191181 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
191204 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
191227 TACCTATTACATCATAT
1 TACCTATTACATTATAT
191244 TTTACCTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:191630 original size:23 final size:23
Alignment explanation
Indices: 191594--191666 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
191584 ATACTTTACA
*
191594 ATATAACCACTACCTATTACATT
1 ATATAAGCACTACCTATTACATT
191617 ATATAAATG-A-TACCTATTACATT
1 ATAT-AA-GCACTACCTATTACATT
*
191640 ATATAAGCACTACCTATTACATC
1 ATATAAGCACTACCTATTACATT
191663 ATAT
1 ATAT
191667 TTTTACATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
21 1 0.02
22 3 0.07
23 37 0.84
24 3 0.07
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.36
Consensus pattern (23 bp):
ATATAAGCACTACCTATTACATT
Found at i:191757 original size:854 final size:854
Alignment explanation
Indices: 189724--192034 Score: 4196
Period size: 852 Copynumber: 2.7 Consensus size: 854
189714 ATGTTTATTG
**
189724 TTTTTAATTTAATAATAATATATTATAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAA
1 TTTTTAATTTAATAAT-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAA
189789 ATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTA
65 ATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTA
*
189853 T-GAACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAA
130 TAG-ACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAA
* *
189917 CGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGT
194 TGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGT
*
189982 GTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTT
259 GTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTT
* *
190046 TTTTAATAGTGTTTCATGTTTTCCACCCACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
324 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
*
190111 TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATAT
389 TATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAATTTTTAA-TTAATAATAATATATAT
*
190176 CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTATTAAATTAATATCTTAAAACTCACTCA
453 CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCA
*
190241 AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATAGACACTTTTATAAAAAGGATA
518 AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATA
190306 GATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGC
583 GATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGC
190371 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATACATACTTTTATAAAAATGATC
648 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATACATACTTTTATAAAAATGATC
190436 GATACTTTGTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCAC
713 GATACTTTGTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCAC
*
190501 CTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTGATATTTTAAAAA
778 CTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTGATATTTTAAAAA
190566 TAATATTTAGAA
843 TAATATTTAGAA
*
190578 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAA-AAATCATTAGACGTCTATAATTACT
1 TTTTTAA-TT--TAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
* *
190642 AAATTAATATCCTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAG
63 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
190707 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTAGCTATTACATTATATAA
128 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
190772 ATGATACCTATTACATTATAT-AGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
193 ATGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
190836 TGTCCATACTTTTTAT-AAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
258 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
190900 TTTTTAATAGTGTTTCATGTTTTCCACTTACAATATTAATTTAATAATTTCATTTACACAAAAAA
323 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
*
190965 TTATTTAATTGTTTTGATATTTGATAAAATAATATTTAGAATTTTTAATTAATAATAATATATAT
388 TTATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAATTTTTAATTAATAATAATATATAT
*
191030 CGTAACGTAAAAAATAAATCATTAGACGCTTATAATTACTAAATTAATATCTTAAAACTCACTCA
453 CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCA
191095 AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATA
518 AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATA
191160 GATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGC
583 GATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGC
* *
191225 GCTACCTATTACATCATA-TTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAA-GAT
648 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATACATAC-TTTTATAAAAATGAT
191288 CGATAC-TTGTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCA
712 CGATACTTTGTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCA
*
191352 CCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTA-ATTTTGATA
777 CCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTGATATTTT-A-A
191416 AAATAATATTTAGAA
840 AAATAATATTTAGAA
*
191431 TTTTTAATTTAATAATATATATCGTAACGTAAAAAATAAATCATTAGAAGCCTATAATTACTAAA
1 TTTTTAATTTAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAA
*
191496 TTAATATCTTAAAACTCACTCAAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTAT
66 TTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTAT
191561 AGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAATG
131 AGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAATG
* *
191626 ATACCTATTACATTATATAAGCACTACCTATTACATCATATTTTTACATATTATATTGAAAGTGT
196 ATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
191691 CCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTT
261 CCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTT
191756 TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTA
326 TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTA
*
191821 TTTGATTGTTTTGATATTTGATAAAATAATATTTAAAATTTTTAATT--TAATAATAATATATCG
391 TTTGATTGTTTTGATATTTGATAAAATAATATTTAGAATTTTTAATTAATAATAAT-ATATATCG
191884 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
455 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
191949 AGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGA
520 AGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGA
*
192014 TATTTTACAATATAACCACTA
585 TACTTTACAATATAACCACTA
192035 TGTTGGGATT
Statistics
Matches: 1409, Mismatches: 35, Indels: 28
0.96 0.02 0.02
Matches are distributed among these distances:
850 27 0.02
851 182 0.13
852 328 0.23
853 220 0.16
854 289 0.21
855 251 0.18
856 104 0.07
857 8 0.01
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (854 bp):
TTTTTAATTTAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAA
TTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTAT
AGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAATG
ATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
CCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTT
TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTA
TTTGATTGTTTTGATATTTGATAAAATAATATTTAGAATTTTTAATTAATAATAATATATATCGT
AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGAT
ACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCT
ACCTATTACATCATATTTTTACCTATTATATTGAAAGTATACATACTTTTATAAAAATGATCGAT
ACTTTGTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTA
CAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTGATATTTTAAAAATAA
TATTTAGAA
Found at i:192324 original size:34 final size:32
Alignment explanation
Indices: 192271--192340 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
192261 ACCTTACAAC
* *
192271 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACATT
*
192303 TCCCTAGCTTTTACACGGGCTAAGCTAGAACATT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACATT
192337 TCCC
1 TCCC
192341 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACATT
Found at i:192580 original size:20 final size:22
Alignment explanation
Indices: 192555--192594 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
192545 AGTCGTATAT
192555 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
192575 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
192595 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:192646 original size:21 final size:21
Alignment explanation
Indices: 192622--192664 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
192612 CCCAGAATAG
*
192622 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
192643 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
192664 A
1 A
192665 ATATTCAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:192802 original size:20 final size:20
Alignment explanation
Indices: 192777--192836 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
192767 AAAACCTGCA
192777 GGGGGTATCTGTACCCCTGG
1 GGGGGTATCTGTACCCCTGG
192797 GGGGGTATCTGTA-CCC---
1 GGGGGTATCTGTACCCCTGG
*
192813 -GGGGTATCTGTCCCCCTGG
1 GGGGGTATCTGTACCCCTGG
192832 GGGGG
1 GGGGG
192837 GGGAATCTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
15 11 0.32
16 3 0.09
19 3 0.09
20 17 0.50
ACGTcount: A:0.08, C:0.25, G:0.43, T:0.23
Consensus pattern (20 bp):
GGGGGTATCTGTACCCCTGG
Found at i:192978 original size:29 final size:31
Alignment explanation
Indices: 192946--193005 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
192936 AAACTTTGAA
*
192946 TAAATTCAATT-ACGTCCAAAAAC-ATTTTG
1 TAAATTCAATTCAAGTCCAAAAACTATTTTG
192975 TAAATTCAATTCAAGTCCAAAAACTATTTTG
1 TAAATTCAATTCAAGTCCAAAAACTATTTTG
193006 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACTATTTTG
Found at i:194306 original size:19 final size:20
Alignment explanation
Indices: 194263--194310 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
194253 TTTAAATCCT
*
194263 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
194283 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
194302 TTTTCAAAA
1 TTTTCAAAA
194311 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:195470 original size:20 final size:22
Alignment explanation
Indices: 195445--195484 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
195435 AGTCGTATAT
195445 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
195465 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
195485 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:195536 original size:21 final size:21
Alignment explanation
Indices: 195512--195554 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
195502 CCCAGAATAG
*
195512 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
195533 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
195554 A
1 A
195555 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:195632 original size:21 final size:20
Alignment explanation
Indices: 195590--195628 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
195580 CTGTTGAACA
195590 GGGGGGGAATCGGTACCCCT
1 GGGGGGGAATCGGTACCCCT
195610 GGGGGGGAATCGGTACCCC
1 GGGGGGGAATCGGTACCCC
195629 CTGGACATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.26, G:0.46, T:0.13
Consensus pattern (20 bp):
GGGGGGGAATCGGTACCCCT
Found at i:195691 original size:20 final size:20
Alignment explanation
Indices: 195666--195725 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
195656 AAAACCTGCA
195666 GGGGGTATCTGTACCCCCTG
1 GGGGGTATCTGTACCCCCTG
195686 GGGGGTATCTGTA--CCC--
1 GGGGGTATCTGTACCCCCTG
195702 -GGGGTATCTGTACCCCCTG
1 GGGGGTATCTGTACCCCCTG
195721 GGGGG
1 GGGGG
195726 GAATCTATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
15 12 0.34
17 3 0.09
18 3 0.09
20 17 0.49
ACGTcount: A:0.10, C:0.27, G:0.40, T:0.23
Consensus pattern (20 bp):
GGGGGTATCTGTACCCCCTG
Found at i:195707 original size:15 final size:15
Alignment explanation
Indices: 195687--195716 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
195677 TACCCCCTGG
195687 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
195702 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
195717 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:195864 original size:29 final size:31
Alignment explanation
Indices: 195832--195891 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
195822 AAACTTTGAA
*
195832 TAAATTCAATT-ACGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
195861 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
195892 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:195955 original size:23 final size:23
Alignment explanation
Indices: 195925--195984 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
195915 TAGTTTAACA
* *
195925 CTATTACATTATATAAATGATAT
1 CTATTACATTATATAAACGATAC
*
195948 CTATTACATTATATAAACGCTAC
1 CTATTACATTATATAAACGATAC
*
195971 CTATTACATCATAT
1 CTATTACATTATAT
195985 TTTTACCTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (23 bp):
CTATTACATTATATAAACGATAC
Found at i:198895 original size:183 final size:183
Alignment explanation
Indices: 198370--198860 Score: 885
Period size: 183 Copynumber: 2.7 Consensus size: 183
198360 TTAAAATTAC
*
198370 CGACACTTTTTTAAATGGTATCAACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
*
198435 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCAGTT
* *
198500 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
198553 CGACACTTTTTTAAATGGTATTGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
198618 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCAGTT
66 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCAGTT
198683 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
198736 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* **
198800 TATTAAAAAGTGTCGATATAGGTTGTAGATTTATTCGCTCATAAAACCGGTATATTTATAC
65 TATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATAC
198861 TGATAGCATT
Statistics
Matches: 297, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 294 0.99
184 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCAGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:199276 original size:23 final size:23
Alignment explanation
Indices: 199250--199312 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
199240 ATATAACCAC
199250 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
199273 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
199296 TACCTATTACATCATAT
1 TACCTATTACATTATAT
199313 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:199699 original size:16 final size:16
Alignment explanation
Indices: 199674--199707 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
199664 ATCTATTACA
*
199674 TTTTTCAATCGACACT
1 TTTTTAAATCGACACT
199690 TTTTTAAATCGACACT
1 TTTTTAAATCGACACT
199706 TT
1 TT
199708 GTTGTGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (16 bp):
TTTTTAAATCGACACT
Found at i:200908 original size:3 final size:3
Alignment explanation
Indices: 200900--200972 Score: 65
Period size: 3 Copynumber: 24.3 Consensus size: 3
200890 ACTTGTTTGG
* * * * * * *
200900 ATC ATC ATC TTC TTC ATC ATC ATC ATC TTC ATC GTC AGC TTC ATC GTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* *
200948 ATC ATC ATC GTC ATC TTC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
200973 GCTTCATCTT
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.23, C:0.33, G:0.05, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:200923 original size:18 final size:18
Alignment explanation
Indices: 200900--200985 Score: 100
Period size: 18 Copynumber: 4.8 Consensus size: 18
200890 ACTTGTTTGG
*
200900 ATCATCATCTTCTTCATC
1 ATCATCATCTTCATCATC
*
200918 ATCATCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* * *
200936 AGCTTCATCGTCATCATC
1 ATCATCATCTTCATCATC
*
200954 ATCGTCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
200972 AGCTTCATCTTCAT
1 ATCATCATCTTCAT
200986 TGACCGCTTG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.40
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:200943 original size:24 final size:24
Alignment explanation
Indices: 200916--200980 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
200906 ATCTTCTTCA
200916 TCATCATCATCTTCATCGTCAGCT
1 TCATCATCATCTTCATCGTCAGCT
* * *
200940 TCATCGTCATCATCATCGTCATCT
1 TCATCATCATCTTCATCGTCAGCT
*
200964 TCATCATCAGCTTCATC
1 TCATCATCATCTTCATC
200981 TTCATTGACC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.22, C:0.34, G:0.08, T:0.37
Consensus pattern (24 bp):
TCATCATCATCTTCATCGTCAGCT
Found at i:200983 original size:6 final size:6
Alignment explanation
Indices: 200904--200985 Score: 74
Period size: 6 Copynumber: 13.7 Consensus size: 6
200894 GTTTGGATCA
* * * * * * *
200904 TCATCT TCTTCA TCATCA TCATCT TCATCG TCAGCT TCATCG TCATCA
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * *
200952 TCATCG TCATCT TCATCA TCAGCT TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCAT
200986 TGACCGCTTG
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.40
Consensus pattern (6 bp):
TCATCT
Found at i:203438 original size:200 final size:199
Alignment explanation
Indices: 202440--203607 Score: 2159
Period size: 198 Copynumber: 5.9 Consensus size: 199
202430 TTTAAATTAG
202440 TATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
202504 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATG-TTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
202568 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTTGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
202633 AAAA
196 AAAA
*
202637 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGAAATATTCTCTCATAAAA-CGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
202701 CTTGTACCGGTTAGATTGAAAATTTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGA
202766 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
202830 AAAAA
195 AAAAA
202835 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
202900 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCAATG-TTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
202964 CGACACTTTTTATATATGGATCGAAACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
203029 AAAA
196 AAAA
203033 TATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
203097 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
203162 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
203227 AAAA
196 AAAA
*
203231 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGATATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
203296 CTTGTACCAGTTACATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTTGGGA
*
203361 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
203426 AAAAA
195 AAAAA
203431 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
203496 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTTGGGA
* *
203561 TCGACACTTTTTATATATGGTTCGACACTTTATGGTTGCATCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
203608 GGCCATATTG
Statistics
Matches: 943, Mismatches: 20, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
197 186 0.20
198 337 0.36
199 163 0.17
200 257 0.27
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
AAAA
Found at i:203772 original size:19 final size:19
Alignment explanation
Indices: 203726--203774 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
203716 TTATATTCAC
*
203726 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
203745 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
203764 ATACAAAATTA
1 ATACAAAATTA
203775 ACCCTACATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:204535 original size:21 final size:21
Alignment explanation
Indices: 204493--204535 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
204483 TTTCTGGGTT
* * *
204493 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
204514 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
204535 A
1 A
204536 TGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:204593 original size:65 final size:67
Alignment explanation
Indices: 204515--204662 Score: 194
Period size: 66 Copynumber: 2.2 Consensus size: 67
204505 ACCCATTCAA
* * *
204515 GGGGAACCGATACCCCCTCAAT-G-AAATGAATTTCCAGAATGCTAGAGGGAATCGGTACCCCCA
1 GGGGAACCGATACCCCCTC-ATCGTAAATGAAATTCCAGAATGCTAGAGGGAATCGATACCCCAA
204578 -GG
65 GGG
* * * *
204580 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGAATCGATACCCTAAG
1 GGGGAACCGATACCCCCTCATCGTAAATGAAATTCCAGAATGCTAGAGGGAATCGATACCCCAAG
204645 GG
66 GG
*
204647 GGGGAACCGATTCCCC
1 GGGGAACCGATACCCC
204663 ATGAGAAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
64 2 0.03
65 20 0.28
66 33 0.46
67 17 0.24
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.19
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCATCGTAAATGAAATTCCAGAATGCTAGAGGGAATCGATACCCCAAG
GG
Found at i:205013 original size:28 final size:29
Alignment explanation
Indices: 204965--205032 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 29
204955 CATATTATGA
**
204965 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
204994 TACATGAC-TGAATTCATATTATATG---
1 TACATGACATGAATTCATATTAAATGTAT
205019 TACATGACATGAAT
1 TACATGACATGAAT
205033 ATGCAGAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 8 0.23
26 5 0.14
28 14 0.40
29 8 0.23
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:205110 original size:28 final size:30
Alignment explanation
Indices: 205047--205104 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
205037 AGAAAAAGTT
*
205047 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGT-ATAAAGGTATGGAAATG
205078 ATATGC-CTATGT-TAAAGGTATGGAAAT
1 ATATGCACTATGTATAAAGGTATGGAAAT
205105 ACTATGTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 14 0.54
30 6 0.23
31 6 0.23
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (30 bp):
ATATGCACTATGTATAAAGGTATGGAAATG
Found at i:205397 original size:22 final size:22
Alignment explanation
Indices: 205323--205389 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
205313 TTATGGACAT
205323 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
205345 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
205367 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
205389 A
1 A
205390 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:211449 original size:21 final size:21
Alignment explanation
Indices: 211407--211449 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
211397 TTTCTGGGTT
* * *
211407 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
211428 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
211449 A
1 A
211450 TGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:211515 original size:67 final size:68
Alignment explanation
Indices: 211407--211582 Score: 207
Period size: 67 Copynumber: 2.6 Consensus size: 68
211397 TTTCTGGGTT
* *
211407 AGGGGAATCGGTACCCATTCAA--GGGGAACCGATACCCCCTCAAT-G-AAATGAATTTCCAGAA
1 AGGGGAATCGGTACCC--CCAAGGGGGGAACCGATACCCCCTC-ATCGTAAATGAAATTCCAGAA
211468 TGCTAG
63 TGCTAG
* *
211474 AGGGGAATCGGTACCCCCAAGGGGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGC
1 AGGGGAATCGGTACCCCCAAGGGGGGAACCGATACCCCCTCATCGTAAATGAAATTCCAGAATGC
*
211539 TTG
66 TAG
* * *
211542 AGGGGAATCGATACCCCTAAGGGGGGGGAACCGATTCCCCC
1 AGGGGAATCGGTACCCCCAA--GGGGGGAACCGATACCCCC
211583 ATGAGAAAAA
Statistics
Matches: 95, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
65 3 0.03
66 2 0.02
67 36 0.38
68 36 0.38
70 18 0.19
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.18
Consensus pattern (68 bp):
AGGGGAATCGGTACCCCCAAGGGGGGAACCGATACCCCCTCATCGTAAATGAAATTCCAGAATGC
TAG
Found at i:211557 original size:68 final size:68
Alignment explanation
Indices: 211429--211582 Score: 204
Period size: 68 Copynumber: 2.2 Consensus size: 68
211419 ACCCATTCAA
* *
211429 GGGGAACCGATACCCCCTCAATGAAATGAATTTCCAGAATGCTAGAGGGGAATCGGTACCCCCAA
1 GGGGAACCGATACCCCCTCAATGAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCAA
211494 -GG
66 GGG
* * * *
211496 GGGGAACCGATACCCCCTC-ATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCT
1 GGGGAACCGATACCCCCTCAAT-G-AAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCC
211560 AAGGGG
64 AA-GGG
*
211566 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
211583 ATGAGAAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
66 2 0.03
67 20 0.26
68 36 0.47
70 18 0.24
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.18
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAATGAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCAA
GGG
Found at i:211919 original size:29 final size:29
Alignment explanation
Indices: 211885--211956 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
211875 CATATTATGA
**
211885 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
211914 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
211943 TACATGACATGAAT
1 TACATGACATGAAT
211957 ATGCAGAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:212013 original size:30 final size:31
Alignment explanation
Indices: 211971--212030 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
211961 AGAAAAAGTT
*
211971 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
*
212002 ATATGC-CTATGTGTTAAAGGTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
212031 ACTATGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:212321 original size:22 final size:22
Alignment explanation
Indices: 212247--212313 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
212237 TTATGGACAT
212247 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
212269 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
212291 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
212313 A
1 A
212314 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Done.